# List of top-scoring protein chains for t2k-100-30-str hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1d5wC 126 2.76e-02 1dbwA c.23.1.1 31101 1dbwA 126 5.56e-02 1dbwA c.23.1.1 31095 1dckA 126 5.75e-02 1dbwA c.23.1.1 31097 1bouB 302 1.18e-01 1bouB c.56.6.1 33859 1hf2A 210 5.50e-01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1kwsA 261 1.03e+00 1fggA 261 1.06e+00 1fggA c.68.1.7 34576 1j5eK 129 1.41e+00 1kzhA 555 1.67e+00 1delA 241 1.74e+00 1dekA c.37.1.1 31844 1fjgK 129 2.03e+00 1fjfK c.55.4.1 33733 1jjfA 268 2.25e+00 c.69.1.2 66765 1ble 163 2.48e+00 1ble c.38.1.1 32475 1dekA 241 2.52e+00 1dekA c.37.1.1 31842 1pcfA 66 2.78e+00 1pcfA d.18.1.1 38142 1ek6A 348 2.98e+00 1xel c.2.1.2 29800 1qj4A 257 3.10e+00 1qj4A c.69.1.20 34796 1ef8A 261 3.15e+00 1ef8A c.14.1.3 30921 1i3kA 348 3.41e+00 1xel c.2.1.2 61595 1ekeA 230 3.53e+00 1ekeA c.55.3.1 33572 1kgsA 225 3.55e+00 a.4.6.1 68596 c.23.1.1 68597 1pfkA 320 4.05e+00 3pfk c.89.1.1 35575 1jztA 246 4.15e+00 c.104.1.1 63319 1yasA 257 4.66e+00 1qj4A c.69.1.20 34801 1ntr 124 4.94e+00 1dbwA c.23.1.1 31092 1azwA 313 5.06e+00 1qtrA c.69.1.7 34658 1liiA 363 5.39e+00 1oakA 196 5.50e+00 1auq c.62.1.1 34138 1fnsA 196 6.03e+00 1auq c.62.1.1 34136 4pgaA 337 6.18e+00 4pgaA c.88.1.1 35565 1gt91 357 6.26e+00 3pga1 337 6.76e+00 4pgaA 2pfkA 320 7.11e+00 3pfk c.89.1.1 35577 1j8fA 323 7.26e+00 1j8fA c.31.1.5 62738 1jr2A 286 7.37e+00 c.113.1.1 67111 1fcjA 322 7.59e+00 1oasA c.79.1.1 35289 1fjgB 256 7.97e+00 1fjfB c.23.15.1 31400 1qh8B 519 8.25e+00 1qguB c.92.2.3 35634 1oasA 322 8.32e+00 1oasA c.79.1.1 35293 1qguB 519 8.43e+00 1qguB c.92.2.3 35626 1pbn 289 8.52e+00 1b8oA c.56.2.1 33771 1ig3A 263 8.73e+00 1ig3A b.82.6.1 62358 c.100.1.1 62359 1hzpA 335 8.85e+00 1hn9A c.95.1.1 61455 c.95.1.1 61456 2chsA 127 8.88e+00 2chsA d.79.1.2 39764 1d2kA 392 9.25e+00 1d2kA c.1.8.5 29008 d.26.3.1 38442 1adoA 363 9.51e+00 1fbaA c.1.10.1 29124 1auq 208 1.01e+01 1auq c.62.1.1 34137 1gkkA 297 1.02e+01 c.69.1.2 65248 1gklA 297 1.04e+01 c.69.1.2 65250 1dbfA 127 1.08e+01 2chsA d.79.1.2 39761 1jilA 420 1.10e+01 c.26.1.1 66745 1ewkA 490 1.13e+01 1ewkA c.93.1.1 35712 1foaA 348 1.13e+01 1foaA c.68.1.10 59929 1gmxA 108 1.14e+01 c.46.1.3 65355 1ijbA 202 1.19e+01 1fo8A 343 1.22e+01 1foaA c.68.1.10 59927 1psdA 409 1.30e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1etu 394 1.37e+01 1efcA c.37.1.8 64737 1a8s 273 1.38e+01 1brt c.69.1.12 34710 1nif 340 1.40e+01 1nif b.6.1.3 23048 b.6.1.3 23049 1cvrA 435 1.40e+01 1cvrA b.1.1.5 21949 c.17.1.2 31006 1fgjA 546 1.45e+01 1fgjA a.138.1.3 19679 1l6sA 323 1.50e+01 1j5eB 256 1.51e+01 1agx 331 1.58e+01 4pgaA c.88.1.1 35564 6pfkA 319 1.65e+01 3pfk c.89.1.1 35583 1qtrA 317 1.85e+01 1qtrA c.69.1.7 34660 1skyB 502 1.85e+01 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 1jsrA 327 1.86e+01 c.88.1.1 67237 3pfk 319 1.88e+01 3pfk c.89.1.1 35581 1b8oA 284 1.90e+01 1b8oA c.56.2.1 33762 1gsoA 431 1.96e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 4pfk 319 1.98e+01 3pfk c.89.1.1 35582 1d3yA 301 2.01e+01 1d3yA e.12.1.1 43252 1dtdA 303 2.01e+01 1aye c.56.5.1 33823 1iufA 144 2.03e+01 1jscA 630 2.06e+01 c.31.1.3 67224 c.36.1.1 67225 c.36.1.1 67226 1cqqA 180 2.06e+01 1cqqA b.47.1.4 26422 1kay 381 2.08e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1bupA 386 2.12e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1jr3A 373 2.15e+01 a.80.1.1 63245 c.37.1.13 63246 1dbqA 289 2.16e+01 1qpzA c.93.1.1 35666 1vjs 483 2.18e+01 1bli b.71.1.1 27714 c.1.8.1 28701 1fezA 256 2.18e+01 1fezA c.108.1.3 43343 1aky 221 2.32e+01 1zin c.37.1.1 31896 g.41.2.1 45197 1qlwA 328 2.36e+01 1qlwA c.69.1.15 34722 1scuA 288 2.41e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1vid 221 2.41e+01 1vid c.66.1.1 34178 1dxeA 256 2.41e+01 1dxeA c.1.12.5 29310 1qpzA 340 2.61e+01 1qpzA a.35.1.5 17097 c.93.1.1 35673 1i8jA 323 2.63e+01 1b4kA c.1.10.3 61968 1yer 228 2.65e+01 1yer d.122.1.1 41101 1iirA 415 2.67e+01 1iirA c.87.1.5 62453 3pnp 289 2.79e+01 1b8oA c.56.2.1 33763 1ei9A 279 2.82e+01 1ei9A c.69.1.13 34713 1cb2A 365 2.93e+01 1bvwA c.6.1.1 30661 3cox 507 2.94e+01 1b8sA c.3.1.2 30332 d.16.1.1 37863 1a88A 275 3.08e+01 1brt c.69.1.12 34707 1gtxA 472 3.16e+01 1gtxA c.67.1.4 34464 1fhdA 312 3.26e+01 1taxA c.1.8.3 28915 2aaa 484 3.28e+01 7taa b.71.1.1 27777 c.1.8.1 28764 1maz 221 3.30e+01 1maz f.1.4.1 43393 1c3pA 375 3.35e+01 1c3pA c.42.1.2 32606 1gn0A 108 3.36e+01 c.46.1.3 65358 2scuB 388 3.37e+01 2scuB c.23.4.1 31141 d.142.1.4 41562 1thm 279 3.39e+01 1gci c.41.1.1 32544 1aoxA 203 3.41e+01 1aoxA c.62.1.1 34151 1i6wA 181 3.53e+01 1i6wA c.69.1.18 61859 1ido 192 3.56e+01 1ido c.62.1.1 34139 1hu4A 288 3.56e+01 1hu4A c.2.1.2 61268 1k78A 149 3.56e+01 a.4.1.5 68255 a.4.1.5 68256 1byqA 228 3.56e+01 1yer d.122.1.1 41100 1fh9A 312 3.57e+01 1taxA c.1.8.3 28913 1qjwA 365 3.59e+01 1bvwA c.6.1.1 30657 1ez0A 510 3.61e+01 1eyyA c.82.1.1 35385 1ba1 386 3.64e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1dsxA 87 3.73e+01 1t1dA d.42.1.2 38644 1hqkA 154 3.73e+01 c.16.1.1 65902 1g8oA 310 3.75e+01 1g8oA c.68.1.9 60375 1et7A 341 3.78e+01 1nif b.6.1.3 23070 b.6.1.3 23071 1akeA 214 3.81e+01 1zin c.37.1.1 31905 g.41.2.1 45185 1efvA 315 3.86e+01 1efvA c.29.1.1 31633 c.31.1.2 31728 1otfA 62 3.88e+01 1otfA d.80.1.1 39820 1qpbA 563 3.90e+01 1zpdA c.31.1.3 31739 c.36.1.1 31781 c.36.1.1 31782